Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u52907.013

ChromosomeExonStartStopDirection
chr7H1305302829305302285-
chr7H2305304132305303817-
chr7H3305304585305304317-
chr7H4305305059305304860-
chr7H5305306720305306483-


grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



Salmon TPM Values: sixteensamplesmorex

These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials


SampleTreatmentRep 1Rep 2Rep 3
morexEMB000
morexETI00.7706310
morexLEA000.42294
morexEPI4.006641.336462.38643
morexROO000
morexROO2000
morexNOD000
morexRAC000
morexINF1000
morexINF2000.426696
morexCAR5000
morexCAR15000
morexLEM00.2549070
morexLOD000
morexPAL00.2723730
morexSEN00.8543550.50821



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g29370.2 +2 6e-151 352 172/204 (84%) protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed
TAIR PP10 AT3G01480 @ ARAPORT
AT3G01480.1 @ TAIR		 +2 1e-135 313 146/204 (72%) Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437
BRACH PP3 Bradi3g34940.1.p +2 3e-155 363 178/204 (87%) pacid=32818759 transcript=Bradi3g34940.1 locus=Bradi3g34940 ID=Bradi3g34940.1.v3.1 annot-version=v3.1




Barley PseudoMolecules GBrowse

Click here to see more tracks within GBrowse -->



grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



CDS Sequence (1568 bp)

>BART1_0-u52907.013 1568 150831_barley_pseudomolecules
CCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACATCCCGAAACCAC
CACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTTCACCGGAACCGT
ACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTGCCGCCGCCCTTC
GCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCTCTCCGGCGAGAA
TGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGGTCTTGC
TGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACTTGAAGA
GCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAAAGAGCT
TCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTGTAGAAGA
AGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCT
TAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGA
TTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGT
AGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGT
TGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAA
GAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTGA
AACACTTGAGGTATGCAACCAGCAGTTTTTTTATTTTTATTTCATGGCTGCTGGGAATTC
TGGCTGCTTCGGATTGAATGTTCTTACAGTTTGTATGGCCATGCATTTCAGGAACTTGGC
CTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGA
GAAGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGAAAGTGAG
TTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATACGTAACC
GAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAATCCAGGTT
GTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCATGTTTCC
GTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTCTTGTGCT
GGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATATACTCCCTC
CGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGATGCAAAATG
AGTGAATCTACACTTTAAATTATGTCTACATACATCCGTATGTAGTTTTCTAGTGGAACC
TTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTATGTGGAATTCGATA
GATAATGG



Protein Sequence (194 aa)

>BART1_0-u52907.013 194 150831_barley_pseudomolecules
MVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVD
LVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTGKSRTIPLEIMVDGDKAPIYGET
LEVCNQQFFYFYFMAAGNSGCFGLNVLTVCMAMHFRNLAFTRLKQSFLLMHLERWQWLEK
NLMTTPLLVKSSGS